Ccdc28a (coiled-coil domain containing 28A) - Rat Genome Database

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Gene: Ccdc28a (coiled-coil domain containing 28A) Rattus norvegicus
Analyze
Symbol: Ccdc28a
Name: coiled-coil domain containing 28A
RGD ID: 1310326
Description: Orthologous to human CCDC28A (coiled-coil domain containing 28A); INTERACTS WITH acetamide; bisphenol A; glafenine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: chemokine C-C motif receptor-like 1 adjacent; coiled-coil domain-containing protein 28A; LOC361454; MGC116395; RGD1310326; similar to chromosome 6 open reading frame 80
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2112,857,668 - 12,872,944 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,857,666 - 12,873,003 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx112,629,455 - 12,644,028 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0118,631,379 - 18,645,952 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0112,837,959 - 12,852,996 (-)NCBIRnor_WKY
Rnor_6.0113,384,153 - 13,395,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl113,384,156 - 13,395,370 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0115,072,108 - 15,083,495 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4113,269,164 - 13,284,200 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1113,269,225 - 13,284,298 (-)NCBI
Celera111,314,407 - 11,329,332 (-)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Ccdc28a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2112,857,668 - 12,872,944 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,857,666 - 12,873,003 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx112,629,455 - 12,644,028 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0118,631,379 - 18,645,952 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0112,837,959 - 12,852,996 (-)NCBIRnor_WKY
Rnor_6.0113,384,153 - 13,395,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl113,384,156 - 13,395,370 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0115,072,108 - 15,083,495 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4113,269,164 - 13,284,200 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1113,269,225 - 13,284,298 (-)NCBI
Celera111,314,407 - 11,329,332 (-)NCBICelera
Cytogenetic Map1p12NCBI
CCDC28A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386138,773,769 - 138,793,319 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl6138,773,769 - 138,793,319 (+)EnsemblGRCh38hg38GRCh38
GRCh376139,094,906 - 139,114,456 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366139,136,350 - 139,156,149 (+)NCBINCBI36Build 36hg18NCBI36
Build 346139,136,349 - 139,156,147NCBI
Celera6139,834,761 - 139,854,557 (+)NCBICelera
Cytogenetic Map6q24.1NCBI
HuRef6136,656,063 - 136,675,758 (+)NCBIHuRef
CHM1_16139,357,677 - 139,377,457 (+)NCBICHM1_1
T2T-CHM13v2.06139,962,307 - 139,981,863 (+)NCBIT2T-CHM13v2.0
Ccdc28a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391018,089,424 - 18,110,940 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1018,089,424 - 18,110,746 (-)EnsemblGRCm39 Ensembl
GRCm381018,213,676 - 18,235,805 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1018,213,676 - 18,234,998 (-)EnsemblGRCm38mm10GRCm38
MGSCv371017,933,491 - 17,954,787 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361017,906,343 - 17,924,394 (-)NCBIMGSCv36mm8
MGSCv361018,092,971 - 18,111,028 (-)NCBIMGSCv36mm8
Celera1018,112,973 - 18,144,756 (-)NCBICelera
Cytogenetic Map10A3NCBI
Ccdc28a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543620,846,227 - 20,873,552 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543620,849,493 - 20,875,284 (-)NCBIChiLan1.0ChiLan1.0
CCDC28A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16140,619,716 - 140,638,830 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6140,619,716 - 140,638,830 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06136,533,841 - 136,553,303 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CCDC28A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1131,044,102 - 31,058,173 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl131,044,126 - 31,057,800 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha131,920,945 - 31,935,141 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0131,207,239 - 31,221,442 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl131,207,395 - 31,221,439 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1131,084,696 - 31,098,895 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0130,966,784 - 30,981,007 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0131,276,492 - 31,290,694 (+)NCBIUU_Cfam_GSD_1.0
CCDC28A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl125,647,000 - 25,663,273 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1125,646,997 - 25,663,277 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2128,782,282 - 28,798,563 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC28A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11334,596,584 - 34,615,633 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660406,769,559 - 6,788,468 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc28a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475315,157,391 - 15,185,029 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475315,157,509 - 15,185,253 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH129522  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,857,764 - 12,857,955 (+)MAPPERmRatBN7.2
Rnor_6.0113,384,250 - 13,384,440NCBIRnor6.0
Rnor_5.0115,072,205 - 15,072,395UniSTSRnor5.0
RGSC_v3.4113,269,261 - 13,269,451UniSTSRGSC3.4
Celera111,314,504 - 11,314,694UniSTS
RH 3.4 Map1132.5UniSTS
Cytogenetic Map1p12UniSTS
RH131595  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,874,395 - 12,874,613 (+)MAPPERmRatBN7.2
Rnor_6.0113,397,060 - 13,397,277NCBIRnor6.0
Rnor_6.0111,843,823 - 11,844,040NCBIRnor6.0
Rnor_5.0115,085,015 - 15,085,232UniSTSRnor5.0
Rnor_5.0113,438,014 - 13,438,231UniSTSRnor5.0
RGSC_v3.4113,285,891 - 13,286,108UniSTSRGSC3.4
Celera111,331,022 - 11,331,239UniSTS
RH 3.4 Map1131.3UniSTS
Cytogenetic Map1p12UniSTS
RH135233  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,871,665 - 12,871,848 (+)MAPPERmRatBN7.2
Rnor_6.0113,394,330 - 13,394,512NCBIRnor6.0
Rnor_6.0111,841,092 - 11,841,274NCBIRnor6.0
Rnor_5.0115,082,285 - 15,082,467UniSTSRnor5.0
Rnor_5.0113,435,283 - 13,435,465UniSTSRnor5.0
RGSC_v3.4113,283,160 - 13,283,342UniSTSRGSC3.4
Celera111,328,292 - 11,328,474UniSTS
RH 3.4 Map1131.9UniSTS
Cytogenetic Map1p12UniSTS
BE118601  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,872,877 - 12,873,067 (+)MAPPERmRatBN7.2
Rnor_6.0113,395,542 - 13,395,731NCBIRnor6.0
Rnor_6.0111,842,304 - 11,842,493NCBIRnor6.0
Rnor_5.0115,083,497 - 15,083,686UniSTSRnor5.0
Rnor_5.0113,436,495 - 13,436,684UniSTSRnor5.0
RGSC_v3.4113,284,372 - 13,284,561UniSTSRGSC3.4
Celera111,329,504 - 11,329,693UniSTS
RH 3.4 Map1131.9UniSTS
Cytogenetic Map1p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1224439043433040Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1439328949393289Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1592587724697545Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)1985600154856001Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11099206555992065Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11148131275088344Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11148148232355910Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)11183518156835181Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:65
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000061756
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 5 5 2 6 2 11 1 13 3
Low 1 38 52 39 13 39 8 11 63 34 28 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085519   ⟹   ENSRNOP00000069590
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,857,694 - 12,872,748 (-)Ensembl
Rnor_6.0 Ensembl113,384,156 - 13,395,370 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096473   ⟹   ENSRNOP00000083034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,857,666 - 12,869,556 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106151   ⟹   ENSRNOP00000080779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,862,496 - 12,873,003 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112538   ⟹   ENSRNOP00000097209
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,857,668 - 12,873,003 (-)Ensembl
RefSeq Acc Id: NM_001037789   ⟹   NP_001032878
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2112,857,668 - 12,872,706 (-)NCBI
Rnor_6.0113,384,153 - 13,395,370 (-)NCBI
Rnor_5.0115,072,108 - 15,083,495 (-)NCBI
RGSC_v3.4113,269,164 - 13,284,200 (-)RGD
Celera111,314,407 - 11,329,332 (-)RGD
Sequence:
RefSeq Acc Id: XM_006227660   ⟹   XP_006227722
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2112,860,441 - 12,872,751 (-)NCBI
Rnor_6.0113,387,957 - 13,395,430 (-)NCBI
Rnor_5.0115,072,108 - 15,083,495 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039081103   ⟹   XP_038937031
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2112,858,220 - 12,872,751 (-)NCBI
RefSeq Acc Id: XM_039081106   ⟹   XP_038937034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2112,858,220 - 12,872,944 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001032878 (Get FASTA)   NCBI Sequence Viewer  
  XP_006227722 (Get FASTA)   NCBI Sequence Viewer  
  XP_038937031 (Get FASTA)   NCBI Sequence Viewer  
  XP_038937034 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI00269 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001032878   ⟸   NM_001037789
- UniProtKB: Q498D0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006227722   ⟸   XM_006227660
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000069590   ⟸   ENSRNOT00000085519
RefSeq Acc Id: XP_038937034   ⟸   XM_039081106
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937031   ⟸   XM_039081103
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000097209   ⟸   ENSRNOT00000112538
RefSeq Acc Id: ENSRNOP00000083034   ⟸   ENSRNOT00000096473
RefSeq Acc Id: ENSRNOP00000080779   ⟸   ENSRNOT00000106151

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q498D0-F1-model_v2 AlphaFold Q498D0 1-184 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13689505
Promoter ID:EPDNEW_R30
Type:initiation region
Name:Ccdc28a_1
Description:coiled-coil domain containing 28A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0113,395,410 - 13,395,470EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310326 AgrOrtholog
BioCyc Gene G2FUF-62277 BioCyc
Ensembl Genes ENSRNOG00000053347 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000069590 ENTREZGENE
  ENSRNOP00000069590.2 UniProtKB/TrEMBL
  ENSRNOP00000080779 ENTREZGENE
  ENSRNOP00000080779.1 UniProtKB/TrEMBL
  ENSRNOP00000083034.1 UniProtKB/TrEMBL
  ENSRNOP00000097209.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085519 ENTREZGENE
  ENSRNOT00000085519.2 UniProtKB/TrEMBL
  ENSRNOT00000096473.1 UniProtKB/TrEMBL
  ENSRNOT00000106151 ENTREZGENE
  ENSRNOT00000106151.1 UniProtKB/TrEMBL
  ENSRNOT00000112538.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7385321 IMAGE-MGC_LOAD
InterPro DUF4061 UniProtKB/TrEMBL
KEGG Report rno:361454 UniProtKB/TrEMBL
MGC_CLONE MGC:116395 IMAGE-MGC_LOAD
NCBI Gene 361454 ENTREZGENE
PANTHER PTHR13400 UniProtKB/TrEMBL
Pfam DUF4061 UniProtKB/TrEMBL
PhenoGen Ccdc28a PhenoGen
UniProt A0A0G2JVR7_RAT UniProtKB/TrEMBL
  A0A8I5ZQU5_RAT UniProtKB/TrEMBL
  A0A8I5ZYH0_RAT UniProtKB/TrEMBL
  A0A8I6AU21_RAT UniProtKB/TrEMBL
  Q498D0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-27 Ccdc28a  coiled-coil domain containing 28A  RGD1310326  similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1310326  similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent  RGD1310326_predicted  similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310326_predicted  similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)  LOC361454_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361454_predicted  similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL